Sequence
atgc intronic sequence ATGC exonic sequencegtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
lower sequence: LOC_Os01g44110.1 (Oryza sativa), 3'ss of exon 3
gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
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gtaagctcacaat-tggctgctagctattgctctgatctctgt-------ttctaacaatcttactcatttacttaattac-attgcatgat----gggtttgcagGGGGCAGGCAGAAAAGGAGTTCAGAGTGGAGGTCGAGGCTATTGGCCATGTCCGGCATAAGAATTTGGTTCGGCTGTTGGGTTACTGTGTTGAGGGAGTG
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA08G42170.2 (Glycine max), 3'ss of exon 1
---------------------gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaa-------ctgtgatcatattat-cgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
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gtaagaacacttgatggtatcattggttccatcttttattttatcctatggcttttatctt-attgcccctatttcttgcttgaacaatgacctttgaacttgctccttgattgcataatgtgttgaattcacagGGGACAAGCAGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTTAGACATAAAAATCTTGTACGATTACTTGGTTATTGCGTAGAAGGGGTT
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
lower sequence: GLYMA18G12830.1 (Glycine max), 3'ss of exon 1
---------------------gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaa-------ctgtgatcatattat-cgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA-
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taagaacacttgatggtagcattgatgccatctt-tgattttatcctatggctcttatctt-attatcattatttcttgcatgaacaatgacatttgaacttgcttcgtaattgcataatgtgttgaattcacaggGGACAAGCTGAGAAAGAATTCAGGGTGGAAGTAGAGGCTATTGGCCATGTCAGACATAAAAATCTTGTGCGCTTACTTGGTTATTGCGTAGAAGGAGTTC
upper sequence: GRMZM2G017386_T03 (Zea mays), 3'ss of exon 2
lower sequence: Vv12s0028g00310.t01 (Vitis vinifera), 3'ss of exon 3
gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
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gtaagaatagatcaaaagcaccttctctcactt-----tttatga------tgctttggttgaaatttggtttatgactgc-attatgaaat----gggttcacagGGGACAGGCAGAAAAAGAGTTCAGGGTTGAAGTTGAGGCTATAGGCCATGTTCGGCATAAAAATCTTGTGCGACTTTTGGGCTATTGCATAGAAGGAGTT atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.tgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
acttaac putative branch site (score: 3)
atcatattat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtaagctcaccttgtgatctctgtctatcactttgatctttgtaatttgtttgttctggtcgaactaggatacttaactgtgatcatattatcgctgggtttgtagGGGGCAGGCAGAAAAAGAATTCAGAGTGGAAGTTGAGGCTATTGGCCATGTCCGACATAAGAATTTGGTTCGGCTGTTGGGATATTGTGTTGAGGGCGTA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - GCTGTT